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Sodium in PDB 6vwx: Nachbac in Lipid Nanodisc

Sodium Binding Sites:

The binding sites of Sodium atom in the Nachbac in Lipid Nanodisc (pdb code 6vwx). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Nachbac in Lipid Nanodisc, PDB code: 6vwx:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 6vwx

Go back to Sodium Binding Sites List in 6vwx
Sodium binding site 1 out of 2 in the Nachbac in Lipid Nanodisc


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Nachbac in Lipid Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na303

b:30.0
occ:1.00
N D:SER192 4.6 51.6 1.0
N E:SER192 4.6 51.6 1.0
N F:SER192 4.6 51.6 1.0
N A:SER192 4.6 51.6 1.0
O D:LEU190 4.8 49.7 1.0
O E:LEU190 4.8 49.7 1.0
O F:LEU190 4.8 49.7 1.0
O A:LEU190 4.8 49.7 1.0
CA D:GLU191 4.9 50.6 1.0
CA E:GLU191 4.9 50.6 1.0
CA F:GLU191 5.0 50.6 1.0
CA A:GLU191 5.0 50.6 1.0

Sodium binding site 2 out of 2 in 6vwx

Go back to Sodium Binding Sites List in 6vwx
Sodium binding site 2 out of 2 in the Nachbac in Lipid Nanodisc


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Nachbac in Lipid Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na304

b:30.0
occ:1.00
O E:THR189 4.8 50.1 1.0
O D:THR189 4.8 50.1 1.0
O F:THR189 4.8 50.1 1.0
O A:THR189 4.9 50.1 1.0
O D:LEU190 4.9 49.7 1.0
O F:LEU190 4.9 49.7 1.0
O E:LEU190 4.9 49.7 1.0
O A:LEU190 4.9 49.7 1.0

Reference:

S.Gao, W.C.Valinsky, N.C.On, P.R.Houlihan, Q.Qu, L.Liu, X.Pan, D.E.Clapham, N.Yan. Employing Nachbac For Cryo-Em Analysis of Toxin Action on Voltage-Gated Na+Channels in Nanodisc. Proc.Natl.Acad.Sci.Usa 2020.
ISSN: ESSN 1091-6490
PubMed: 32513729
DOI: 10.1073/PNAS.1922903117
Page generated: Tue Oct 8 14:27:51 2024

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